Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402689.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5751.0, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 958

Length: 1597
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.36

Warning! 90 characters in sequence are not A, C, G, or T


Found at i:629 original size:171 final size:172

Alignment explanation


    Indices: 338--998  Score: 439
    Period size: 171  Copynumber: 3.9  Consensus size: 172

        328 NNNNNNNNNN

                       *              *               *          *   *       
        338 AGCCTTATTACACGCTTTAAATGATTCTATAATCTCATAATTCA-TTTTAAGTTAAATTTTTTTA
          1 AGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGACTTTTAAGTAAAAATTTTTTA

            *     *********        *       **   *      *      *              
        402 TATTTNNNNNNNNNNACAGATTACAATTGAATGTCTACCTCGAGAAA-ATTAAGAAAAAGATATT
         66 CATTT-TTTATTAAAACAGATTAAAATTGAAAATCTGCCTCGAAAAACATGAAGAAAAAGATATT

                   *    *          *                   
        466 CAGTGGCGAGAATAGTCCATTTATAGTCACCCACACCTTCAAA
        130 CAGTGGCAAGAAAAGTCCATTTACAGTCACCCACACCTTCAAA

                  *                                            *             
        509 AGCCTTTTTACTCGCTTTAAAT-ATTTCTATAATCTCATAATTGACTTTT-GGTAAAAATTTTTT
          1 AGCCTTATTACTCGCTTTAAATGATTT-TATAATCTCATAATTGACTTTTAAGTAAAAATTTTTT

             *                *                  **           *          *   
        572 ATATTTTTTATTAAAACATATTAAAATT-AAAAGTCTTTCTC-AAGAAACGTGAAG-AAAACATA
         65 ACATTTTTTATTAAAACAGATTAAAATTGAAAA-TCTGCCTCGAA-AAACATGAAGAAAAAGATA

                *              *              ***     *  
        634 TTCATTGGCAAGAAAAGTCTATTTACAGTCACCCGTGCCTTCGAA
        128 TTCAGTGGCAAGAAAAGTCCATTTACAGTCACCCACACCTTCAAA

              *         *          *    *             * *        *  **       
        679 AGGCTTATTACTTGCTTTAAATGGTTTTGTAATCTCATAATTTAGTTTTAAGTTAATTTTTTTTA
          1 AGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGACTTTTAAGTAAAAATTTTTTA

                           *      *       *                                  
        744 CATTTTTTATTAAAATAGATTATAATTGAATATCTGCCTCGAAAAACATGAAGAAAAAGATA-TC
         66 CATTTTTTATTAAAACAGATTAAAATTGAAAATCTGCCTCGAAAAACATGAAGAAAAAGATATTC

             *********             *       * **  *     
        808 NNNNNNNNNNAAAAGTCCATTTATAGTCACCTATGCCATCAAA
        131 -AGTGGCAAGAAAAGTCCATTTACAGTCACCCACACCTTCAAA

                                                              *      *  *    
        851 AGCCTTATTACTCAG-TTTAAAT-AGTTTTATAATCTCATAATTGA-TTTCAAG-ATTAATTTTT
          1 AGCCTTATTACTC-GCTTTAAATGA-TTTTATAATCTCATAATTGACTTTTAAGTA-AAAATTTT

                         **      *   *       ** * *   *  *                 * 
        912 TTACATTTTTTATGGAAACAGGTTATAATTGAATGTTTACCTGGAGAAACATGAAGAAAAAGACA
         63 TTACATTTTTTATTAAAACAGATTAAAATTGAAAATCTGCCTCGAAAAACATGAAGAAAAAGATA

                   *               
        977 TTCA-TCAGCAAGAAAAGTCCAT
        128 TTCAGT-GGCAAGAAAAGTCCAT

        999 NNNNNNNNNN


Statistics
Matches: 377,  Mismatches: 97, Indels: 32
        0.75            0.19        0.06

Matches are distributed among these distances:
 169    3  0.01
 170  104  0.28
 171  188  0.50
 172   81  0.21
 173    1  0.00

ACGTcount: A:0.36, C:0.14, G:0.11, T:0.36


Consensus pattern (172 bp):   
AGCCTTATTACTCGCTTTAAATGATTTTATAATCTCATAATTGACTTTTAAGTAAAAATTTTTTA
CATTTTTTATTAAAACAGATTAAAATTGAAAATCTGCCTCGAAAAACATGAAGAAAAAGATATTC
AGTGGCAAGAAAAGTCCATTTACAGTCACCCACACCTTCAAA

Done.